Details of Microbe Species (MIC)

General Information of MIC (ID: MC0689)
  MIC Name
Burkholderia cepacia GG4
  Lineage Kingdom: Bacteria
Phylum: Proteobacteria
Class: Betaproteobacteria
Order: Burkholderiales
Family: Burkholderiaceae
Genus: Burkholderia
  Oxygen Sensitivity
Microaerophile
  Microbial Metabolism
Non-Fermentative; Asaccharolytic
  Gram
Negative
  Genome Size (bp)
6467321
  No. of Coding Genes
5825
  No. of Non-Coding Genes
66
  No. of Small Non-Coding Genes
66
  No. of Gene Transcripts
5891
  Description
Burkholderia cepacia GG4 is a gram-negative and mcroaerophile strain from the genus of Burkholderia.
  External Links Taxonomy ID 1009846
Genome Assembly ID ASM29291v1
GOLD Database ID Go0011118

Full List of Metabolite(s) Produced by This MIC
     Molecule Type: Amino acid (AAs)
           Metabolite Name: Phenylacetate Click to Show/Hide
              Detailed Infomation Meta Info click to show the detail information of this Metabolite
              Metabolic Classification Microbial producted compound [precursors]
Modification Type Molecule EM Info Cell/Tissue Type Modified sites Condition REF
Histone Deacetylation HDAC EM Info . . . [1], [2]
           Metabolite Name: Tryptophan Click to Show/Hide
              Detailed Infomation Meta Info click to show the detail information of this Metabolite
              Metabolic Classification Microbial producted compound [precursors]
Modification Type Molecule EM Info Cell/Tissue Type Modified sites Condition REF
DNA Methylation FMNL2 EM Info Hepatocellular CpG site: Cg01467882 non-alcoholic steatohepatitis [1], [2]
DNA Methylation ARL4C EM Info Hepatocellular CpG site: Cg15016771 non-alcoholic steatohepatitis [1], [2]
DNA Methylation FAM188B EM Info Hepatocellular CpG site: Cg02543636 non-alcoholic steatohepatitis [1], [2]
DNA Methylation CRTAC1 EM Info Hepatocellular CpG site: Cg03888360 non-alcoholic steatohepatitis [1], [2]
DNA Methylation COL4A1 EM Info Hepatocellular CpG site: Cg26090406 non-alcoholic steatohepatitis [1], [2]
DNA Methylation BMP2 EM Info Hepatocellular CpG site: Cg16831623 non-alcoholic steatohepatitis [1], [2]
DNA Methylation FGD6 EM Info Hepatocellular CpG site: Cg21182715 non-alcoholic steatohepatitis [1], [2]
DNA Methylation FAM100A EM Info Hepatocellular CpG site: Cg05009047 non-alcoholic steatohepatitis [1], [2]
DNA Methylation CLPTM1L EM Info Hepatocellular CpG site: Cg10641823 non-alcoholic steatohepatitis [1], [2]
DNA Methylation CLDN8 EM Info Hepatocellular CpG site: Cg06427867 non-alcoholic steatohepatitis [1], [2]
DNA Methylation C1QTNF1 EM Info Hepatocellular CpG site: Cg00193613 non-alcoholic steatohepatitis [1], [2]
DNA Methylation MCC EM Info Hepatocellular CpG site: Cg24094897 non-alcoholic steatohepatitis [2], [3]
DNA Methylation SEMA3E EM Info Hepatocellular CpG site: Cg14519356 non-alcoholic steatohepatitis [2], [3]
DNA Methylation SLCO3A1 EM Info Hepatocellular CpG site: Cg03756778 non-alcoholic steatohepatitis [2], [3]
DNA Methylation TRPV6 EM Info Hepatocellular CpG site: Cg0642946 non-alcoholic steatohepatitis [2], [3]
DNA Methylation SLC22A20 EM Info Hepatocellular CpG site: Cg27428304 non-alcoholic steatohepatitis [2], [3]
DNA Methylation ZNF611 EM Info Hepatocellular CpG site: Cg27182293 non-alcoholic steatohepatitis [2], [4]
DNA Methylation LGALS9 EM Info Hepatocellular CpG site: Cg27625456 non-alcoholic steatohepatitis [5], [2]
DNA Methylation ITGB4 EM Info Hepatocellular CpG site: Cg16916914 non-alcoholic steatohepatitis [5], [2]
DNA Methylation HDAC9 EM Info Hepatocellular CpG site: Cg16925459 non-alcoholic steatohepatitis [6], [2]
DNA Methylation GRHL3 EM Info Hepatocellular CpG site: Cg02984188 non-alcoholic steatohepatitis [6], [2]
     Molecule Type: Fatty acids
           Metabolite Name: Butyrate Click to Show/Hide
              Detailed Infomation Meta Info click to show the detail information of this Metabolite
              Metabolic Classification Microbial producted compound [end-products]
Modification Type Molecule EM Info Cell/Tissue Type Modified sites Condition REF
DNA Demethylation DPPA2 EM Info iPS cells promoter . [1], [2]
DNA Demethylation POU5F1 EM Info iPS cells promoter . [1], [2]
Histone Acetylation H3 EM Info CD41T cells Foxo3A promoter . [1], [2]
Histone Acetylation H3K9 EM Info KGN cells GPR41 . [1], [2]
Histone Acetylation H3K9 EM Info KGN cells GPR43 . [1], [2]
Histone Deacetylation HDAC1 EM Info . . . [7], [2]
Histone Deacetylation HDAC2 EM Info . . . [1], [2]
miRNA miR-92a EM Info Colon cancer cells . Colon cancer [1], [2]
           Metabolite Name: Propionate Click to Show/Hide
              Detailed Infomation Meta Info click to show the detail information of this Metabolite
              Metabolic Classification Microbial producted compound [end-products]
Modification Type Molecule EM Info Cell/Tissue Type Modified sites Condition REF
Histone Propionylation H3 EM Info Primary myocytes lysine 23 Health [1], [2]
Histone Propionylation H3K23 EM Info C2C12 cells Myod . [1], [2]
     Molecule Type: Other metabolites
           Metabolite Name: a-Ketoglutarate (a-Kg) Click to Show/Hide
              Detailed Infomation Meta Info click to show the detail information of this Metabolite
              Metabolic Classification Microbial producted compound [precursors]
Modification Type Molecule EM Info Cell/Tissue Type Modified sites Condition REF
Histone Trimethylation H3K27 EM Info Mesenchymal stromal stem cells Bmp2 promoter Age-related osteoporosis [8], [2]
Histone Trimethylation H3K27 EM Info Mesenchymal stromal stem cells Nanog promoter Age-related osteoporosis [8], [2]
Histone Trimethylation H3K9 EM Info Mesenchymal stromal stem cells Nanog promoter Age-related osteoporosis [8], [2]
Histone Trimethylation H3K9 EM Info Mesenchymal stromal stem cells Bmp2 promoter Age-related osteoporosis [2], [4]
Histone Trimethylation H3K27 EM Info Mesenchymal stromal stem cells Bmp4 promoter Age-related osteoporosis [9], [2]


References
1 Serum aromatic and branched-chain amino acids associated with NASH demonstrate divergent associations with serum lipids. Liver Int. 2021 Apr;41(4):754-763. doi: 10.1111/liv.14743. Epub 2020 Dec 5.
2 The Virtual Metabolic Human database: integrating human and gut microbiome metabolism with nutrition and disease. Nucleic Acids Res. 2019 Jan 8;47(D1):D614-D624. doi: 10.1093/nar/gky992.
3 Alpha-ketoglutarate ameliorates age-related osteoporosis via regulating histone methylations. Nat Commun. 2020 Nov 5;11(1):5596. doi: 10.1038/s41467-020-19360-1.
4 Propionate hampers differentiation and modifies histone propionylation and acetylation in skeletal muscle cells. Mech Ageing Dev. 2021 Jun;196:111495. doi: 10.1016/j.mad.2021.111495. Epub 2021 Apr 28.
5 Butyrate drives the acetylation of histone H3K9 to activate steroidogenesis through PPAR-gamma and PGC1-alpha pathways in ovarian granulosa cells. FASEB J. 2021 Feb;35(2):e21316. doi: 10.1096/fj.202000444R.
6 Butyrate greatly enhances derivation of human induced pluripotent stem cells by promoting epigenetic remodeling and the expression of pluripotency-associated genes. Stem Cells. 2010 Apr;28(4):713-20. doi: 10.1002/stem.402.
7 Crosstalk between the microbiome and epigenome: messages from bugs. J Biochem. 2018 Feb 1;163(2):105-112. doi: 10.1093/jb/mvx080.
8 Dietary metabolites derived from gut microbiota: critical modulators of epigenetic changes in mammals. Nutr Rev. 2017 May 1;75(5):374-389. doi: 10.1093/nutrit/nux001.
9 Commensal microbe-derived butyrate induces the differentiation of colonic regulatory T cells. Nature. 2013 Dec 19;504(7480):446-50. doi: 10.1038/nature12721. Epub 2013 Nov 13.

If You Find Any Error in Data or Bug in Web Service, Please Kindly Report It to Dr. Tang and Dr. Zhang.